Metadata-Version: 1.1
Name: fisher
Version: 0.1.5
Summary: Fast Fisher's Exact Test
Home-page: http://github.com/brentp/fishers_exact_test
Author: haibao tang, brent pedersen
Author-email: bpederse@gmail.com
License: BSD
Description: Fisher's Exact Test
        ===================
        
        .. image:: https://travis-ci.org/brentp/fishers_exact_test.svg?branch=master
            :target: https://travis-ci.org/brentp/fishers_exact_test
        
        Simple, fast implementation of `Fisher's exact test <http://en.wikipedia.org/wiki/Fisher's_exact_test>`_. . For example, for the following table:
        
        ============  =====================  =========================
        o              Having the property    Not having the property
        ============  =====================  =========================
        Selected      12                     5
        Not selected  29                     2
        ============  =====================  =========================
        
        Perhaps we are interested in whether there is any difference of property in selected vs. non-selected groups, then we can do the Fisher's exact test.
        
        
        Installation
        ============
        within this folder ::
        
            easy_install .
        
        from pypi ::
        
            easy_install fisher
        
        or from github (contributions welcomed) ::
        
            git clone git://github.com/brentp/fishers_exact_test.git
        
        
        Usage
        =====
        ``fisher.pvalue()`` accepts 4 values corresponding to the 2-by-2 contingency table, returns an object with attributes for left_tail, right_tail, and two_tail p-values
        ::
        
            >>> from fisher import pvalue
            >>> mat = [[12, 5], [29, 2]]
            >>> p = pvalue(12, 5, 29, 2)
            >>> p.left_tail, p.right_tail, p.two_tail  # doctest: +NORMALIZE_WHITESPACE, +ELLIPSIS
            (0.04455473783507..., 0.994525206021..., 0.0802685520741...)
        
        Benchmark
        =========
        A simple benchmark that calls the Fisher's exact test 1000 times (in ``scripts/rfisher.py``)::
        
            calling python fisher...
            iterations/sec: 3000.62526381
            calling rpy fisher...
            iterations/sec: 289.225902364
            calling R directly...
            iterations/sec: 244.36542276
        
        So the cython fisher is up to 10 times faster than rpy or R version.
        
Keywords: statistics cython
Platform: UNKNOWN
Classifier: Development Status :: 3 - Alpha
Classifier: Intended Audience :: Developers
Classifier: Intended Audience :: Science/Research
Classifier: License :: OSI Approved :: BSD License
Classifier: Operating System :: OS Independent
Classifier: Programming Language :: Python
Classifier: Topic :: Scientific/Engineering
Classifier: Programming Language :: Python :: 2
Classifier: Programming Language :: Python :: 3
Requires: numpy
